mengyao / Complete-Striped-Smith-Waterman-Library

Related projects: ⓘ

• jeffdaily / parasail
  Pairwise Sequence Alignment Library
  ☆241Updated 10 months ago
• marbl / Mash
  Fast genome and metagenome distance estimation using MinHash
  ☆386Updated 10 months ago
• refresh-bio / KMC
  Fast and frugal disk based k-mer counter
  ☆266Updated 3 weeks ago
• EddyRivasLab / hmmer
  HMMER: biological sequence analysis using profile HMMs
  ☆307Updated 3 weeks ago
• mdshw5 / pyfaidx
  Efficient pythonic random access to fasta subsequences
  ☆450Updated last month
• gmarcais / Jellyfish
  A fast multi-threaded k-mer counter
  ☆463Updated 6 months ago
• rvaser / spoa
  SIMD partial order alignment tool/library
  ☆157Updated 9 months ago
• lh3 / kmer-cnt
  Code examples of fast and simple k-mer counters for tutorial purposes
  ☆162Updated 4 years ago
• Illumina / hap.py
  Haplotype VCF comparison tools
  ☆406Updated 9 months ago
• BenLangmead / bowtie
  An ultrafast memory-efficient short read aligner
  ☆259Updated 2 years ago
• lh3 / minigraph
  Sequence-to-graph mapper and graph generator
  ☆405Updated 4 months ago
• maickrau / GraphAligner
  ☆255Updated 3 weeks ago
• marbl / MashMap
  A fast approximate aligner for long DNA sequences
  ☆265Updated 7 months ago
• rrwick / Bandage
  a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
  ☆579Updated last year
• mummer4 / mummer
  Mummer alignment tool
  ☆445Updated 5 months ago
• nanopore-wgs-consortium / NA12878
  Data and analysis for NA12878 genome on nanopore
  ☆373Updated last year
• pezmaster31 / bamtools
  C++ API & command-line toolkit for working with BAM data
  ☆415Updated 2 months ago
• ParBLiSS / FastANI
  Fast Whole-Genome Similarity (ANI) Estimation
  ☆366Updated 8 months ago
• isovic / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…
  ☆268Updated 4 months ago
• rrwick / Basecalling-comparison
  A comparison of different Oxford Nanopore basecallers
  ☆313Updated 5 years ago
• pmelsted / bifrost
  Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
  ☆201Updated 5 months ago
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆426Updated this week
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆547Updated last month
• aquaskyline / SOAPdenovo2
  Next generation sequencing reads de novo assembler.
  ☆219Updated 8 months ago
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆302Updated last month
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆766Updated 3 weeks ago
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆367Updated last year
• dzerbino / velvet
  Short read de novo assembler using de Bruijn graphs, as published in: D.R. Zerbino and E. Birney. 2008. Velvet: algorithms for de novo sh…
  ☆279Updated 6 years ago
• lh3 / miniasm
  Ultrafast de novo assembly for long noisy reads (though having no consensus step)
  ☆303Updated 9 months ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆302Updated last year